X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 289.0
Details PEG3350, lithium sulfate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.53 α = 90
b = 68.53 β = 92.4
c = 56.88 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2016-04-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U1 0.9791 SSRF BL17U1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.2 50 99.8 0.097 -- -- 3.6 -- 21028 -- -- 30.17
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.2 2.28 99.8 0.419 -- -- 3.6 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.2 43.748 -- 1.37 -- 20478 1009 97.1 -- 0.1702 0.1678 0.2156 --
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.1972 2.3131 -- 124 2376 0.2052 0.2743 0.0 84.0
X Ray Diffraction 2.3131 2.458 -- 146 2798 0.1983 0.2636 0.0 98.0
X Ray Diffraction 2.458 2.6478 -- 157 2811 0.1935 0.276 0.0 100.0
X Ray Diffraction 2.6478 2.9142 -- 168 2824 0.1939 0.272 0.0 100.0
X Ray Diffraction 2.9142 3.3357 -- 133 2891 0.1764 0.2385 0.0 100.0
X Ray Diffraction 3.3357 4.2021 -- 97 2888 0.1471 0.2032 0.0 99.0
X Ray Diffraction 4.2021 43.7565 -- 184 2881 0.1477 0.1551 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.5076
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.936
f_chiral_restr 0.053
f_bond_d 0.007
f_dihedral_angle_d 9.058
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3359
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 181

Software

Software
Software Name Purpose
HKL-2000 data scaling
PHENIX refinement version: 1.12_2829
PDB_EXTRACT data extraction version: 3.22
HKL-2000 data reduction
PHASER phasing